General information for g16545.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Aldehyde dehydrogenase family 3 member A2.
Parent gene
- The parent gene g16545 is located on chr_4: 9883580..9889051 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_4 | g16545 | g16545.t3 | isoform | g16545.t3 | 9878915 | 9879945 |
| chr_4 | g16545 | g16545.t3 | exon | g16545.t3.exon1 | 9878915 | 9879071 |
| chr_4 | g16545 | g16545.t3 | cds | g16545.t3.CDS1 | 9878915 | 9879071 |
| chr_4 | g16545 | g16545.t3 | exon | g16545.t3.exon2 | 9879135 | 9879265 |
| chr_4 | g16545 | g16545.t3 | cds | g16545.t3.CDS2 | 9879135 | 9879265 |
| chr_4 | g16545 | g16545.t3 | exon | g16545.t3.exon3 | 9879322 | 9879637 |
| chr_4 | g16545 | g16545.t3 | cds | g16545.t3.CDS3 | 9879322 | 9879621 |
| chr_4 | g16545 | g16545.t3 | exon | g16545.t3.exon4 | 9879705 | 9879945 |
| chr_4 | g16545 | g16545.t3 | TSS | g16545.t3 | NA | NA |
| chr_4 | g16545 | g16545.t3 | TTS | g16545.t3 | NA | NA |
Sequences
>g16545.t3 Gene=g16545 Length=845
GCGGAAAATCTCCATGTTACATTGATGACACAGTTGATCTCAATAGAGCTGCAAAAAGAA
TTCTTTGGGGAAAAAATAGCAATGTTGGACAGACTTGTATTGCACCTGATTACATCATTT
GTACCAAAGAAATTGAAAAAAAATTTATCGAAGAGTCAAGAAATGTGATTAAAGAATGGT
ATGGTGATGATGTACAACAAAGTCCTGATTATGGTAGAATTGCAACTGATGGAAATTTCA
AACGTCTCGTGACATTTATGAATTGTGGAACAATAGCTTTAGGAGGAAAATTTGATGCAT
CTGATCGATTTATAGAACCAACAATTCTTACAGATGTTAGTCATGATGATCCAGTGATGA
GAGAAGAAATTTTTGGACCAATTTTGCCAATTGTCAATATTCATGACATTCATGATGCAA
TTGATTTTATTAATGCTCGTGATAAGCCATTATCACTTTATATTTTTACAAGTAACAACA
AAGATAGAGATTTAATCATTGATAGCACTTCAGCTGGTGCAGTTTGTGTTAATGATACTG
TTGTGCATTTTGTTTGTAATTTACCATTTGGTGGTGTTGGAGCAAGTGGCATGGGAGCTT
ATCATGGAAAATATAATTTTGATACTTTTACACATGAAAAAGGATGTTTAGAGAAATCAA
TGGATTATGTGTCTGAAAAATTATCTGATGCACGTTATCCACCATATACTGATAATAAAG
CATCATATCTTTCATTTATGATGAAAAAAAGAAAATTTTGGAAAATTCCATTTTTCTCTC
ATATTCTTGCCTTTGCTTTTGGAGCAGCTGCAGCATATTATTTGAAGAAGTATTACTTTA
ACTAA
>g16545.t3 Gene=g16545 Length=195
MNCGTIALGGKFDASDRFIEPTILTDVSHDDPVMREEIFGPILPIVNIHDIHDAIDFINA
RDKPLSLYIFTSNNKDRDLIIDSTSAGAVCVNDTVVHFVCNLPFGGVGASGMGAYHGKYN
FDTFTHEKGCLEKSMDYVSEKLSDARYPPYTDNKASYLSFMMKKRKFWKIPFFSHILAFA
FGAAAAYYLKKYYFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16545.t3 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 5 | 110 | 8.0E-54 |
| 6 | g16545.t3 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 111 | 130 | 8.0E-54 |
| 2 | g16545.t3 | PANTHER | PTHR43570:SF29 | ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q | 2 | 192 | 1.2E-78 |
| 3 | g16545.t3 | PANTHER | PTHR43570 | ALDEHYDE DEHYDROGENASE | 2 | 192 | 1.2E-78 |
| 1 | g16545.t3 | Pfam | PF00171 | Aldehyde dehydrogenase family | 5 | 128 | 3.1E-28 |
| 8 | g16545.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 169 | - |
| 10 | g16545.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 170 | 189 | - |
| 9 | g16545.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 190 | 195 | - |
| 5 | g16545.t3 | SUPERFAMILY | SSF53720 | ALDH-like | 5 | 131 | 3.14E-38 |
| 4 | g16545.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 189 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016620 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
